Query psy8040
Match_columns 272
No_of_seqs 113 out of 131
Neff 2.7
Searched_HMMs 46136
Date Fri Aug 16 16:53:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8040.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8040hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3953|consensus 100.0 8.9E-37 1.9E-41 274.4 5.4 103 169-271 5-107 (242)
2 KOG4367|consensus 94.7 0.023 5E-07 57.5 3.0 65 190-259 531-600 (699)
3 KOG2626|consensus 94.4 0.064 1.4E-06 54.6 5.2 72 190-267 294-366 (544)
4 smart00449 SPRY Domain in SPla 83.7 0.74 1.6E-05 35.0 1.8 12 232-243 1-12 (122)
5 PF11413 HIF-1: Hypoxia-induci 32.7 16 0.00034 25.4 0.1 13 8-21 17-29 (34)
6 KOG0349|consensus 32.0 65 0.0014 33.9 4.4 70 188-262 86-156 (725)
7 KOG4030|consensus 30.4 49 0.0011 30.2 2.9 57 197-263 35-91 (197)
8 PF11393 IcmL: Macrophage kill 29.8 45 0.00097 26.7 2.3 33 208-243 74-106 (108)
9 PLN02709 nudix hydrolase 29.4 45 0.00098 30.6 2.5 47 30-78 80-127 (222)
10 COG5513 Predicted secreted pro 24.3 93 0.002 26.5 3.3 23 231-255 70-92 (113)
11 PF11456 DUF3019: Protein of u 24.2 60 0.0013 26.2 2.1 37 41-77 11-48 (102)
12 PRK10707 putative NUDIX hydrol 22.1 73 0.0016 27.8 2.4 47 32-79 75-121 (190)
No 1
>KOG3953|consensus
Probab=100.00 E-value=8.9e-37 Score=274.43 Aligned_cols=103 Identities=58% Similarity=0.986 Sum_probs=100.7
Q ss_pred CCCchhhhhccCCCCCcccccccccCCCCCCCCeEEecCCeeEEEEcccccccchhccccccccceeEEEEEecCCCCcc
Q psy8040 169 QRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGFTKGFHIWEVHWSARQRGT 248 (272)
Q Consensus 169 ~~p~RlD~LL~~PP~~~~~q~~waWNp~DrS~NI~LK~ddklTfHRHPVaQSTDaIRGKkGls~G~H~WEI~W~~r~rGT 248 (272)
.+|.|++.|++|||...+.+..|+||+.|||.|+++|+++++||||||||||||+||||+||++|+|+|||.|+.+|+||
T Consensus 5 ~~~~~l~~l~~~~~~~~~~~~~~~w~~~drs~nv~vk~~~~~tfhrhpvaqstd~~rGk~g~~~g~h~w~i~w~~r~~GT 84 (242)
T KOG3953|consen 5 TESVRLDQLLFMPPSALGVQAQHGWSPSDRSLNVFVKLPDGLTFHRHPVAQSTDGIRGKRGYSRGRHAWEIAWPNRQRGT 84 (242)
T ss_pred ccccccchhhhcCCcchhhHHhhccCcccccceeEEecCCcceEEecCCccccccccceeeeccCceEEEEEecCCccCC
Confidence 67889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEeeecCCccccCCCcccccc
Q psy8040 249 HAVVGVGTIDAPLHSVGYQIIRF 271 (272)
Q Consensus 249 hAMVGVgTkeApLh~~GY~sLl~ 271 (272)
||||||+||.|||||.||++||+
T Consensus 85 ~avVGIaTk~Aplha~gy~aLlG 107 (242)
T KOG3953|consen 85 HAVVGIATKVAPLHAVGYTALLG 107 (242)
T ss_pred cceEEEEcccCchhhhHHHHHhC
Confidence 99999999999999999999986
No 2
>KOG4367|consensus
Probab=94.72 E-value=0.023 Score=57.54 Aligned_cols=65 Identities=25% Similarity=0.459 Sum_probs=45.4
Q ss_pred ccccCCCC---CCCCeEEecCCeeEEEEcccccc--cchhccccccccceeEEEEEecCCCCcceEEEeeecCCc
Q psy8040 190 KHAWNPED---RSLNIFVKDDDKLTFHRHPVAQS--TDCIRGRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDA 259 (272)
Q Consensus 190 ~waWNp~D---rS~NI~LK~ddklTfHRHPVaQS--TDaIRGKkGls~G~H~WEI~W~~r~rGThAMVGVgTkeA 259 (272)
+.+|=.-+ ....+.++.++ +|+.- +| --.|-|+++|++|.||||+....----.+.+|||+--.+
T Consensus 531 ~vawfqlt~spsqrdmilsnec-atlsg----ssleyrtilgsiafskgvhywevtidrhdgnsdivigvaqpav 600 (699)
T KOG4367|consen 531 EVAWFQLTPSPSQRDMILSNEC-ATLSG----SSLEYRTILGSIAFSKGVHYWEVTIDRHDGNSDIVIGVAQPAV 600 (699)
T ss_pred ceeeeeccCCchhhceeeeccc-ceecc----cccchheeeeecccccceeEEEEEEeccCCCCCceEEecchhh
Confidence 44554444 44567777664 77532 22 356889999999999999999943345788999997544
No 3
>KOG2626|consensus
Probab=94.36 E-value=0.064 Score=54.55 Aligned_cols=72 Identities=21% Similarity=0.408 Sum_probs=61.9
Q ss_pred ccccCCCCCCCCeEEecCCeeEEEEcccccccchhccccccccceeEEEEEecCCCCcceEEEeeecCCccccC-CCcc
Q psy8040 190 KHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHS-VGYQ 267 (272)
Q Consensus 190 ~waWNp~DrS~NI~LK~ddklTfHRHPVaQSTDaIRGKkGls~G~H~WEI~W~~r~rGThAMVGVgTkeApLh~-~GY~ 267 (272)
.-+| .|+..++.|++| ++|+.-. -+--.||++.|+.+|--|+||+...-+=++|+=+|.++..++|++ .||.
T Consensus 294 ~l~~--hdrA~ql~Is~d-rlt~tge---KGy~MvRAshgv~~G~WYFEI~vd~~pd~~a~RlGwsq~~g~LqApvGYd 366 (544)
T KOG2626|consen 294 NLSW--HDRAEQLKISED-RLTATGE---KGYRMVRASHGVLEGAWYFEIKVDEMPDDAAIRLGWSQLYGNLQAPVGYD 366 (544)
T ss_pred hhhh--hccccccccccc-ceeeecc---cceeeeeecccccccceeEEEEeecCCCccceeeeccccccccccccccc
Confidence 4567 789999999987 4776532 366789999999999999999999889999999999999999988 5775
No 4
>smart00449 SPRY Domain in SPla and the RYanodine Receptor. Domain of unknown function. Distant homologues are domains in butyrophilin/marenostrin/pyrin homologues.
Probab=83.66 E-value=0.74 Score=34.99 Aligned_cols=12 Identities=33% Similarity=0.415 Sum_probs=10.1
Q ss_pred cceeEEEEEecC
Q psy8040 232 KGFHIWEVHWSA 243 (272)
Q Consensus 232 ~G~H~WEI~W~~ 243 (272)
.|+|||||++..
T Consensus 1 sG~~YwEV~v~~ 12 (122)
T smart00449 1 SGRHYFEVEIFD 12 (122)
T ss_pred CCcEEEEEEEcC
Confidence 489999999854
No 5
>PF11413 HIF-1: Hypoxia-inducible factor-1; InterPro: IPR021537 Hypoxia-inducible factors (HIFs) are transcription factors that respond to changes in available oxygen in the cellular environment. Specifically, they respond to decreases in oxygen, mediating the effects of hypoxia []. HIFs are heterodimers, composed of an alpha and a beta subunit. At least 3 different alpha subunits are known to exist, termed HIF-1, -2 and -3 alpha. Beta subunits, meanwhile, are constitutively-expressed aryl hydrocarbon receptor nuclear translocators (ARNTs). In addition to their role in hypoxia, HIFs have been shown to be involved in a range of processes, including angiogenesis, metal transport, mitochondrial function and cell growth []. This entry represents HIF alpha subunits.; PDB: 3HQU_S 1LQB_D 1LM8_H 3HQR_S.
Probab=32.72 E-value=16 Score=25.43 Aligned_cols=13 Identities=54% Similarity=0.866 Sum_probs=5.3
Q ss_pred ccccccccccccCc
Q psy8040 8 DIPMEVDDFQSSGL 21 (272)
Q Consensus 8 ~~~~~~~~~~~~~~ 21 (272)
-|||. ||||-.-+
T Consensus 17 YIpMd-dDFqL~~~ 29 (34)
T PF11413_consen 17 YIPMD-DDFQLRPI 29 (34)
T ss_dssp B--SS---EE-TT-
T ss_pred ccccC-ccceeccC
Confidence 48999 99996544
No 6
>KOG0349|consensus
Probab=32.04 E-value=65 Score=33.86 Aligned_cols=70 Identities=26% Similarity=0.377 Sum_probs=48.3
Q ss_pred ccccccCCCCCCCCeEEecCCeeEEEEcccccccchhccccccc-cceeEEEEEecCCCCcceEEEeeecCCcccc
Q psy8040 188 QVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGFT-KGFHIWEVHWSARQRGTHAVVGVGTIDAPLH 262 (272)
Q Consensus 188 q~~waWNp~DrS~NI~LK~ddklTfHRHPVaQSTDaIRGKkGls-~G~H~WEI~W~~r~rGThAMVGVgTkeApLh 262 (272)
.-.|.-|+.|+-...-|.+++ +.-...-+ ----+.||+.|+- +|.||+|+.... -|- -=||-+|..|.|+
T Consensus 86 ~~~w~mn~~Drg~alaI~~dG-L~CqSre~-KeWhGcRaT~Gl~gkGK~YyEvtitd--~GL-CRVGWsT~qasLd 156 (725)
T KOG0349|consen 86 PREWKMNKQDRGLALAIDEDG-LACQSREK-KEWHGCRATAGLYGKGKYYYEVTITD--KGL-CRVGWSTLQASLD 156 (725)
T ss_pred ccccccCccccCceeeEcCCc-cccchhHH-hhhhccccccccccCceEEEEEEecc--Cce-eeechhhcccccc
Confidence 345999999999999998875 43111000 0125678888885 899999999875 332 3478888888774
No 7
>KOG4030|consensus
Probab=30.36 E-value=49 Score=30.20 Aligned_cols=57 Identities=16% Similarity=0.219 Sum_probs=43.0
Q ss_pred CCCCCeEEecCCeeEEEEcccccccchhccccccccceeEEEEEecCCCCcceEEEeeecCCccccC
Q psy8040 197 DRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHS 263 (272)
Q Consensus 197 DrS~NI~LK~ddklTfHRHPVaQSTDaIRGKkGls~G~H~WEI~W~~r~rGThAMVGVgTkeApLh~ 263 (272)
+--+++.|-.++. .-.+|-++-++.++....-|+|++... .|| -=||+||+..+|..
T Consensus 35 hMG~dVvilk~g~-------RicGtGG~lAtaPlvQnKsYFevkiQ~--tG~-WgiGlat~q~~l~~ 91 (197)
T KOG4030|consen 35 HMGKDVVILKEGE-------RICGTGGALATAPLVQNKSYFEVKIQQ--TGT-WGIGLATKQSPLDK 91 (197)
T ss_pred ccCCcEEEEecCc-------EEeccCceeeeeeeecccceEEEEEee--cce-eeeeeeeccCcccc
Confidence 3445565554432 136899999999999999999999763 555 56899999999965
No 8
>PF11393 IcmL: Macrophage killing protein with similarity to conjugation protein; InterPro: IPR021055 IcmL contains two amphipathic beta-sheet regions, required for the pore-forming ability which may be related to the transfer of this protein into a host cell membrane []. The icmL gene shows significant similarity to plasmid genes involved in conjugation however IcmL is thought to be required for macrophage killing. It is unknown whether conjugation plays a role in macrophage killing [].
Probab=29.78 E-value=45 Score=26.75 Aligned_cols=33 Identities=18% Similarity=0.274 Sum_probs=23.5
Q ss_pred CeeEEEEcccccccchhccccccccceeEEEEEecC
Q psy8040 208 DKLTFHRHPVAQSTDCIRGRVGFTKGFHIWEVHWSA 243 (272)
Q Consensus 208 dklTfHRHPVaQSTDaIRGKkGls~G~H~WEI~W~~ 243 (272)
.++++ +++..++..|+.+.-. .|.++|+|+++-
T Consensus 74 ~~l~~--~a~~t~~~vi~~~g~~-~G~~~W~vq~Pi 106 (108)
T PF11393_consen 74 KRLNL--SAVVTGAPVIVEEGVN-NGVYAWKVQVPI 106 (108)
T ss_pred cceEE--eeecCCCcEEEEEecc-CCeEEEEEEecc
Confidence 45654 4555677777766555 999999999873
No 9
>PLN02709 nudix hydrolase
Probab=29.43 E-value=45 Score=30.58 Aligned_cols=47 Identities=26% Similarity=0.273 Sum_probs=30.7
Q ss_pred hhhhHHHhhhchhhhhcceeE-EEEeeccccccccccccCCCCcEEEEEe
Q psy8040 30 DRVALAIAIRGLEEEMGSHIT-FELHLRDQSATNYCLSDYSQYPVVFFLS 78 (272)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (272)
|.-..+-|+|.++||+|-... .++. .+...-+-.+.+.-+|+|.++.
T Consensus 80 D~~~~~tAlRE~~EEiGl~~~~v~vl--g~L~~~~t~sg~~V~P~V~~~~ 127 (222)
T PLN02709 80 DKDDIATALREAREEIGLDPSLVTII--SVLEPFVNKKGMSVAPVIGFLH 127 (222)
T ss_pred CCCHHHHHHHHHHHHHCCCchheEEe--eecCCeECCCCCEEEEEEEEec
Confidence 455678999999999997553 2222 1122223345677789999885
No 10
>COG5513 Predicted secreted protein [Function unknown]
Probab=24.28 E-value=93 Score=26.55 Aligned_cols=23 Identities=35% Similarity=0.668 Sum_probs=19.7
Q ss_pred ccceeEEEEEecCCCCcceEEEeee
Q psy8040 231 TKGFHIWEVHWSARQRGTHAVVGVG 255 (272)
Q Consensus 231 s~G~H~WEI~W~~r~rGThAMVGVg 255 (272)
++|.|.|+|+... -||.-+.|+=
T Consensus 70 ~~G~~~W~i~av~--~G~q~v~g~Y 92 (113)
T COG5513 70 SPGIHTWEIRAVK--QGTQQVEGTY 92 (113)
T ss_pred CCceEEEEEEeec--CCceEEEEEE
Confidence 6899999999885 7999998873
No 11
>PF11456 DUF3019: Protein of unknown function (DUF3019); InterPro: IPR021559 This is a bacterial family of uncharacterised proteins.
Probab=24.17 E-value=60 Score=26.25 Aligned_cols=37 Identities=27% Similarity=0.408 Sum_probs=29.0
Q ss_pred hhhhhcceeEEEEeecccccccccc-ccCCCCcEEEEE
Q psy8040 41 LEEEMGSHITFELHLRDQSATNYCL-SDYSQYPVVFFL 77 (272)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 77 (272)
++|+-.-+++++|+---..+.+||| +++..+|...+.
T Consensus 11 ~~~~~~C~~~v~l~Wq~~~~~~~CL~~~~~~~~l~Cw~ 48 (102)
T PF11456_consen 11 SREGQFCYQTVELQWQSPTPQDYCLYSDQEEQPLQCWQ 48 (102)
T ss_pred cCCCCCceEEEEEEEECCCCCCeEEEECCccccchhcc
Confidence 4566677899999999999999998 477778865543
No 12
>PRK10707 putative NUDIX hydrolase; Provisional
Probab=22.09 E-value=73 Score=27.78 Aligned_cols=47 Identities=19% Similarity=0.133 Sum_probs=26.8
Q ss_pred hhHHHhhhchhhhhcceeEEEEeeccccccccccccCCCCcEEEEEec
Q psy8040 32 VALAIAIRGLEEEMGSHITFELHLRDQSATNYCLSDYSQYPVVFFLSH 79 (272)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (272)
-.+..|+|.|+||+|-...---.+- .-..++-.+++.-.|+|+|+..
T Consensus 75 ~~~~tA~REl~EEtGl~~~~~~~lg-~l~~~~~~~~~~~~~~v~~~~~ 121 (190)
T PRK10707 75 SLIATALREAQEEVAIPPSAVEVIG-VLPPVDSSTGYQVTPVVGIIPP 121 (190)
T ss_pred cHHHHHHHHHHHHHCCCccceEEEE-EeeeeeccCCcEEEEEEEEECC
Confidence 3578899999999996432111111 1111122345666788888743
Done!